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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
MPGTKRFQHVIETPEPGKWELSGYEAAVPITEKSNPLTQDLDKADAENIVRLLGQCDAEIFQEEGQSTYQRLYSESILTT
MVQVAGKVQEVLKEPDGGLVVLSGGGTSGRMAFLMSVSFNQLMKGLGQKPLYTYLIAGGDRSVVASREGTEDSALHGIEE
LKKVAAGKKRVIVIGISVGLSAPFVAGQMDCCMNNTAVFLPVLVGFNPVSMARNDPIEDWSSTFRQVAERMQKMQEKQKA
FVLNPAIGPEGLSGSSRMKGGSATKILLETLLLAAHKTVDQGIAASQRCLLEILRTFERAHQVTYSQSPKIATLMKSVST
SLEKKGHVYLVGWQTLGIIAIMDGVECIHTFGADFRDVRGFLIGQGPQFTFSQEDFLTSILPSLTEIDTVVFIFTLDDNL
TEVQTIVEQVKEKTNHIQALAHSTVGQTLPIPLKKLFPSIISITWPLLFFEYEGNFIQKFQRELSTKWVLNTVSTGAHVL
LGKILQNHMLDLRISNSKLFWRALAMLQRFSGQSKARCIESLLRAIHFPQPLSDDIRAAPISCHVQVAHEKEQVIPIALL
SLLFRCSITEAQAHLAAAPSVCEAVRSALA

The query sequence (length=590) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 4bb9:A 596 599 0.9831 0.9732 0.9683 0.0 4bba:A, 4ly9:A, 4ly9:B, 4mqu:A, 4mqu:B, 4mro:A, 4mro:B, 4msu:A, 4msu:B, 4ohk:A, 4ohk:B, 4ohm:A, 4ohm:B, 4oho:A, 4oho:B, 4ohp:A, 4ohp:B, 4olh:A, 4olh:B, 4op1:A, 4op1:B, 4op2:A, 4op2:B, 4op3:A, 4op3:B, 4px2:A, 4px2:B, 4px3:A, 4px3:B, 4px5:A, 4px5:B, 4pxs:A, 4pxs:B
2 4lc9:A 567 585 0.8627 0.8977 0.8701 0.0
3 3w0l:B 598 602 0.5983 0.5903 0.5864 0.0 3w0l:D
4 4lzj:B 299 254 0.1085 0.2140 0.2520 6.85e-11 4lzj:C, 4lzj:D, 4lzj:A
5 4lzj:B 299 247 0.1000 0.1973 0.2389 1.35e-07 4lzj:C, 4lzj:D, 4lzj:A
6 6s6t:A 1472 72 0.0322 0.0129 0.2639 0.28 6s6s:A, 6s6s:B, 6s6s:C, 6s6s:D, 6s6t:B, 6s6t:C, 6s6t:D, 6s6u:A, 6s6u:B, 6s6u:C, 6s6u:D, 6s6u:E, 6s6u:F, 6s6x:A, 6s6x:B, 6s6x:C, 6s6x:D, 6s6x:E, 6s6x:F, 2vdc:A, 2vdc:B, 2vdc:C, 2vdc:D, 2vdc:E, 2vdc:F
7 1ea0:A 1452 72 0.0322 0.0131 0.2639 0.28 1ea0:B
8 4twl:A 239 89 0.0458 0.1130 0.3034 0.67 4twl:B
9 3zsc:A 329 67 0.0322 0.0578 0.2836 1.8
10 8u2m:B 382 136 0.0593 0.0916 0.2574 2.5 8u2m:A, 8u2m:C, 8u3n:A, 8u3n:B, 8u3n:C, 8ukz:A, 8ukz:B, 8ukz:C
11 4xqk:A 1517 109 0.0492 0.0191 0.2661 3.0 4xqk:B
12 7ase:l 258 118 0.0441 0.1008 0.2203 4.1 5opt:L
13 2c3c:A 522 60 0.0322 0.0364 0.3167 4.2 2c3c:B, 2c3d:A, 2c3d:B, 7mgn:A, 7mgn:B, 7mgo:B, 1mo9:A, 1mo9:B, 1mok:A, 1mok:B, 1mok:C, 1mok:D, 3q6j:A, 3q6j:B
14 7ct4:C 347 74 0.0441 0.0749 0.3514 5.7 7ct4:A, 7ct4:B, 7ct4:D
15 5xzu:A 334 33 0.0237 0.0419 0.4242 9.1
16 3ldg:A 377 94 0.0390 0.0610 0.2447 9.8

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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